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Small-molecule inhibitors of the PDZ domain of Dishevelled proteins interrupt Wnt signalling
Starting Model(s) Initial Refinement Model(s) Type Source Accession Code Details experimental model PDB 2F0A
Crystallization Crystalization Experiments ID Method pH Temperature Details 1 VAPOR DIFFUSION, SITTING DROP 293 30% PEG 8000, 0.2 M ammonium sulphate, 0.1 M MES pH 6.5
Crystal Properties Matthews coefficient Solvent content 2.59 52.55
Crystal Data Unit Cell Length ( Å ) Angle ( ˚ ) a = 76.35 α = 90 b = 76.35 β = 90 c = 72.57 γ = 90
Diffraction Diffraction Experiment ID # Crystal ID Scattering Type Data Collection Temperature Detector Detector Type Details Collection Date Monochromator Protocol 1 1 x-ray 100 PIXEL DECTRIS PILATUS3 6M 2009-05-19 M SINGLE WAVELENGTH
Radiation Source ID # Source Type Wavelength List Synchrotron Site Beamline 1 SYNCHROTRON BESSY BEAMLINE 14.1 0.91841 BESSY 14.1
Data Collection Overall ID # Resolution (High) Resolution (Low) Percent Possible (Observed) Rrim I (All) Net I Over Average Sigma (I) Redundancy Number Reflections (All) Number Reflections (Observed) Observed Criterion Sigma (F) Observed Criterion Sigma (I) B (Isotropic) From Wilson Plot 1 1.85 30.9 99.8 0.0058 20.5 7.4 17796
Highest Resolution Shell ID # Resolution (High) Resolution (Low) Percent Possible (All) Percent Possible (Observed) Rrim I (All) Mean I Over Sigma (Observed) Redundancy Number Unique Reflections (All) 1 1.85 1.9 0.105 2.1
Refinement Statistics Diffraction ID Structure Solution Method Cross Validation method Starting model Resolution (High) Resolution (Low) Number Reflections (Observed) Number Reflections (R-Free) Percent Reflections (Observed) R-Factor (Observed) R-Work (Depositor) R-Work (DCC) R-Free (Depositor) R-Free (DCC) R-Free Selection Details Mean Isotropic B X-RAY DIFFRACTION MOLECULAR REPLACEMENT THROUGHOUT 2F0A 1.85 30.9 16906 890 99.84 0.1874 0.1853 0.1901 0.2268 0.2378 RANDOM 36.252
Temperature Factor Modeling Anisotropic B[1][1] Anisotropic B[1][2] Anisotropic B[1][3] Anisotropic B[2][2] Anisotropic B[2][3] Anisotropic B[3][3] -0.06 -0.06 0.12
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.314 r_dihedral_angle_4_deg 18.667 r_dihedral_angle_3_deg 16.169 r_dihedral_angle_1_deg 6.956 r_angle_refined_deg 1.09 r_angle_other_deg 1 r_rigid_bond_restr 0.754 r_chiral_restr 0.03 r_gen_planes_refined 0.016 r_gen_planes_other 0.014
RMS Deviations Key Refinement Restraint Deviation r_dihedral_angle_2_deg 42.314 r_dihedral_angle_4_deg 18.667 r_dihedral_angle_3_deg 16.169 r_dihedral_angle_1_deg 6.956 r_angle_refined_deg 1.09 r_angle_other_deg 1 r_rigid_bond_restr 0.754 r_chiral_restr 0.03 r_gen_planes_refined 0.016 r_gen_planes_other 0.014 r_bond_refined_d 0.002 r_bond_other_d 0.001
Non-Hydrogen Atoms Used in Refinement Non-Hydrogen Atoms Number Protein Atoms 1283 Nucleic Acid Atoms Solvent Atoms 126 Heterogen Atoms 72
Software Software Software Name Purpose XDS data reduction XSCALE data scaling REFMAC refinement PDB_EXTRACT data extraction PHASER phasing